Mercurial > repos > mingchen0919 > rmarkdown_i_adhore
comparison i_adhore_configure.Rmd @ 6:8cf3b1298508 draft
planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_i_adhore commit 60ea96204588be4348bd5d7879d1eb0d73f487c7-dirty
| author | mingchen0919 |
|---|---|
| date | Tue, 15 Aug 2017 15:38:10 -0400 |
| parents | dab02b629d48 |
| children | f86be5aeea36 |
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| 5:dab02b629d48 | 6:8cf3b1298508 |
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| 45 ``` | 45 ``` |
| 46 | 46 |
| 47 # Other parameters | 47 # Other parameters |
| 48 | 48 |
| 49 ```{r} | 49 ```{r} |
| 50 data_dir = gsub('dataset_.*dat', '', opt$blast_table) | |
| 51 output_dir = tail(strsplit(opt$i_adhore_configure_dir, '/')[[1]], 1) | 50 output_dir = tail(strsplit(opt$i_adhore_configure_dir, '/')[[1]], 1) |
| 52 output_path = paste(data_dir, output_dir, sep = '') | 51 output_path = gsub('dataset_.*dat', output_dir, opt$blast_table) |
| 53 | 52 |
| 54 params = c( | 53 params = c( |
| 55 'blast_table' = opt$blast_table, | 54 'blast_table' = opt$blast_table, |
| 56 'output_path' = output_path, | 55 'output_path' = output_path, |
| 57 'gap_size' = opt$gap_size, | 56 'gap_size' = opt$gap_size, |